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frailtypack (version 2.7.6.1)

General Frailty Models: Shared, Joint and Nested Frailty Models with Prediction

Description

The following several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation can be fit using this R package: 1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied. 2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope). 3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects. 4) Joint frailty models in the context of joint modelling for recurrent events with terminal event for clustered data or not. 5) Joint General frailty models in the context of a joint modelling for recurrent events with terminal event data with two independent frailty terms. Prediction values are available. Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have a gamma distribution, but you can switch to a log-normal in shared and joint models. Now, you can also consider time-varying covariates effects in Cox, shared and joint models. The package includes concordance measures for Cox proportional hazards models and for shared frailty models.

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Version

Install

install.packages('frailtypack')

Monthly Downloads

2,571

Version

2.7.6.1

License

GPL (>= 2.0)

Maintainer

Virginie Rondeau

Last Published

September 1st, 2015

Functions in frailtypack (2.7.6.1)

plot.multivPenal

Plot Method for a multivariate frailty model.
plot.predFrailty

Plot predictions using a Cox or a shared frailty model.
print.Cmeasures

Print a short summary of results of Cmeasure function.
plot.epoce

Plot values of estimators of the Expected Prognostic Observed Cross-Entropy (EPOCE).
summary.frailtyPenal

summary of parameter estimates of a shared frailty model
frailtypack-package

General Frailty models: shared, joint and nested frailty models with prediction
dataMultiv

Simulated data for two types of recurrent events and a terminal event
bcos

Breast Cosmesis Data
subcluster

Identify subclusters
additivePenal

Fit an Additive Frailty model using a semiparametric penalized likelihood estimation or a parametric estimation
plot.predJoint

Plot predictions using a joint frailty model.
num.id

Identify individuals in Joint model for clustered data
plot.additivePenal

Plot Method for an Additive frailty model.
print.additivePenal

Print a Short Summary of parameter estimates of an additive frailty model
print.jointPenal

Print a Short Summary of parameter estimates of a joint frailty model
terminal

Identify terminal indicator
plot.jointPenal

Plot Method for a Joint frailty model.
Diffepoce

Difference of Expected Prognostic Observed Cross-Entropy (EPOCE) estimators and its 95% tracking interval between two joint frailty models.
dataAdditive

Simulated data as a gathering of clinical trials databases
plot.Diffepoce

Plot difference of EPOCE estimators between two joint frailty models.
print.nestedPenal

Print a Short Summary of parameter estimates of a nested frailty model
readmission

Rehospitalization colorectal cancer
hazard

Hazard function.
survival

Survival function
summary.nestedPenal

summary of regression coefficient estimates of a nested frailty model
epoce

Estimators of the Expected Prognostic Observed Cross-Entropy (EPOCE) for evaluating predictive accuracy of joint frailty models.
frailtyPenal

Fit a Shared, Joint or Nested Frailty model
plot.frailtyPenal

Plot Method for a Shared frailty model.
prediction

Prediction probabilities for Cox proportionnal hazard, Shared and Joint frailty models (Not available for General Joint)
print.multivPenal

Print a Short Summary of parameter estimates of a multivariate frailty model
summary.multivPenal

summary of parameter estimates of a multivariate frailty model.
Cmeasures

Concordance measures in shared frailty and Cox proportional hazard models
event2

Identify event2 indicator
timedep

Identify time-varying effects
multivPenal

Fit a multivariate frailty model for two types of recurrent events and a terminal event.
summary.jointPenal

summary of parameter estimates of a joint frailty model
slope

Identify variable associated with the random slope
dataNested

Simulated data with two levels of grouping
summary.additivePenal

summary of parameter estimates of an additive frailty model
print.frailtyPenal

Print a Short Summary of parameter estimates of a shared frailty model
print.prediction

Print a short summary of results of prediction function.
SurvIC

Create a survival object for interval censoring and possibly left truncated data
plot.nestedPenal

Plot Method for a Nested frailty model.